DreINT0095027 @ danRer10
Intron Retention
Gene
ENSDARG00000079199 | megf6a
Description
multiple EGF-like-domains 6a [Source:ZFIN;Acc:ZDB-GENE-090312-12]
Coordinates
chr23:21215051-21215617:-
Coord C1 exon
chr23:21215489-21215617
Coord A exon
chr23:21215180-21215488
Coord C2 exon
chr23:21215051-21215179
Length
309 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TTATATGCGTCTCATCATAGCGT
3' ss Score
6.7
Exon sequences
Seq C1 exon
CTTGTCCTGAGGGCTTTCATGGCTTGGAGTGCCAGCAGAAGTGCCAGTGCTTGAATGGTGGCCGTTGTCATCCCGTGACTGGAGGCTGCCAGTGTCCATCTGGTTGGGTCGGGCCAGTTTGCAATGCCA
Seq A exon
GTGAGTAATTTTACTGCGGTCAACATCCCATGACAGTCAACGGTAACAAGAAGCATGTTCAAAGCACTCCCTGTGTCTGTTGTGTAAGGTGAAAGGAAAGCACTAGAGCAGATGCTCTGAGTTTGTGTGGTGGTTTGCATGTGAAGTTACGAGATGTCCTAATGTGTGTCTGCAGTCTACATTTCAGTCTTTCATATGAAAACCTGGTGGCGTTGTGTTTCAGGATGTTTTAGTTCTTTCCATATATCTCAGAATAAATGCATGTTGTGTTGATTATATTTTTCTGTTTTTATATGCGTCTCATCATAG
Seq C2 exon
CGTGTGAAGCTGGCACCTTTGGGCCGGCCTGCAGTCAAACCTGTAGATGCCACAATAATGGCACCTGTGACCCTGCTGATGGGCGATGTGAGTGTGGAGCAGGATGGACAGGCAGCAGCTGTGAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079199:ENSDART00000143206:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF079748=EGF_2=WD(100=70.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGTCCTGAGGGCTTTCATGG
R:
CTTGTTCACAGCTGCTGCCT
Band lengths:
257-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]